HsaINT0147395 @ hg19
Intron Retention
Gene
ENSG00000095539 | SEMA4G
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G [Source:HGNC Symbol;Acc:10735]
Coordinates
chr10:102732286-102733034:+
Coord C1 exon
chr10:102732286-102732793
Coord A exon
chr10:102732794-102732885
Coord C2 exon
chr10:102732886-102733034
Length
92 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGA
5' ss Score
6.12
3' ss Seq
ACTGTTCCTGCTCTCCCCAGAGC
3' ss Score
11.06
Exon sequences
Seq C1 exon
AAAACGGACCTCAGAAAACCAGGACTAGCTCTACTGTCGGGGGCAGGGTGACCCCATCAGTAACCTACAACCCCTCTAGAACTTCACAACTCCCTCTCACCATGGAGTTTGCATTTGATGCAGAAAGGCATGTGATCCCTCCCTCCTTCTGACCTCTTAGCTGGGGATTCCATGGCCACACAACCCTGTGACTCCATGTCCCCCCGATTCCAGGACCCCCCATGGCCCCATGATTCCTTGACTCCTATGACCTTATGACCCCTGACCTTCCAAGTGACTTCCTTGGACTTTGACCCCTGTGACTGTGCTTCCCATTCCCCGCCCCCACAACCTGTGACTCTGGCTCCCTTTGGGGGTCTTGTTAGTCTGGGCCTCCCCAGGAAGATGTGGGGGAGGCTCTGGCCCCTCCTCCTCAGCATCCTCACAGCAACTGCAGTCCCAGGACCCTCACTGCGGAGACCGTCTAGAGAACTAGATGCCACCCCTCGGATGACCATACCCTATGAAG
Seq A exon
GTTAGACCCTCAACCTCAAAAGGCAGCAGAAGCCAGGGCTGGGGGTGGGGAGGCACCCCAGAACTAGGGCTCACTGTTCCTGCTCTCCCCAG
Seq C2 exon
AGCTCTCTGGGACCCGGCACTTCAAGGGCCAAGCCCAGAACTACTCAACACTGCTGCTGGAGGAGGCCTCAGCAAGGCTGCTGGTGGGAGCCCGAGGTGCCCTGTTCTCTCTCAGTGCCAACGACATAGGAGATGGGGCTCACAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000095539-SEMA4G:NM_017893:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(30.4=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAACTAGATGCCACCCCTCG
R:
TGTCGTTGGCACTGAGAGAGA
Band lengths:
167-259
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)